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| Deletions are marked like this. | Additions are marked like this. |
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| see https://surfer.nmr.mgh.harvard.edu/fswiki/CorticalParcellation_Yeo2011 for example | |
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| intro here, | {{attachment:flateconlyinflated2014.jpg}} |
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| ''Author: Jean Augustinack'' | |
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| == Parcellations in FreeSurfer Surface Space == ||'''7 Network Estimate''' ||'''7 Network Confidence'''||'''17 Network Estimate''' ||'''17 Network Confidence'''|| || {{attachment:Yeo2011_JNeurophysiol_7networks_lateral.png}} || {{attachment:Yeo2011_JNeurophysiol_7networks_lateral_confidence.png}}|| {{attachment:Yeo2011_JNeurophysiol_17networks_lateral.png}} || {{attachment:Yeo2011_JNeurophysiol_17networks_lateral_confidence.png}}|| || {{attachment:Yeo2011_JNeurophysiol_7networks_medial.png}} || {{attachment:Yeo2011_JNeurophysiol_7networks_medial_confidence.png}}|| {{attachment:Yeo2011_JNeurophysiol_17networks_medial.png}} || {{attachment:Yeo2011_JNeurophysiol_17networks_medial_confidence.png}}|| |
The entorhinal cortex is located on the crown of the anterior parahippocampal gyrus. Brodmann assigned the number 28 to entorhinal cortex (Brodmann’s area 28). Entorhinal cortex displays a unique cytoarchitecture with large neurons in layer II that form clusters. The entorhinal cortex is the gateway to the hippocampus. In Alzheimer’s disease (AD), neurons in the entorhinal cortex, particularly those in layer II, begin to die and some leave behind a pathological marker – the neurofibrillary tangle. Neurofibrillary tangles and significant cell death characterize the neuronal loss in AD where neurofibrillary tangles and subsequent atrophy have been correlated with dementia. |
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| you have three options for using these labels: labels in freesurfer surface space are in subjects dir subj/label/?h.perirhinal.label instructions on how to view in freeview where to get stats on this label (../stats/$hemi.BA.stats) already in freesurfer 5.3 |
Please note that there two entorhinal labels exist in FreeSurfer 1) the EC label included in the aparc atlas and 2) the cytoarchitecturally-defined entorhinal label (i.e., the ex vivo one). |
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| Reference for Entorhinal cortex, Cytoarchitecturally-defined labels: | |
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| label in volume space | Fischl B, et al. Predicting the location of entorhinal cortex from MRI. Neuroimage. 2009 Aug 1;47(1):8-17. |
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| mapping surface label to subjects volume space | == Where to find the entorhinal (cytoarchitectural-defined) labels in FreeSurfer == |
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| will be available in v6 | Right and left labels for entorhinal are available in freesurfer 5.3 |
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| or if you have freesurfer, run this to map from surface space to volume space and then this is how you view it. | The labels are in freesurfer surface space and located in subjects dir subj/label/?h.entorhinal_exvivo.label |
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| See instructions on how to view in freeview | |
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| label in fsaverage volume space [[attachment:perirhinal_fsaverage.nii]] label in mni152 volume space [[attachment:perirhinal_mni152.nii]] |
To generate stats on this label (../stats/$hemi.BA.stats) |
Entorhinal Cortex
Author: Jean Augustinack
The entorhinal cortex is located on the crown of the anterior parahippocampal gyrus. Brodmann assigned the number 28 to entorhinal cortex (Brodmann’s area 28). Entorhinal cortex displays a unique cytoarchitecture with large neurons in layer II that form clusters. The entorhinal cortex is the gateway to the hippocampus. In Alzheimer’s disease (AD), neurons in the entorhinal cortex, particularly those in layer II, begin to die and some leave behind a pathological marker – the neurofibrillary tangle. Neurofibrillary tangles and significant cell death characterize the neuronal loss in AD where neurofibrillary tangles and subsequent atrophy have been correlated with dementia.
Please note that there two entorhinal labels exist in FreeSurfer 1) the EC label included in the aparc atlas and 2) the cytoarchitecturally-defined entorhinal label (i.e., the ex vivo one).
Reference for Entorhinal cortex, Cytoarchitecturally-defined labels:
Fischl B, et al. Predicting the location of entorhinal cortex from MRI. Neuroimage. 2009 Aug 1;47(1):8-17.
Where to find the entorhinal (cytoarchitectural-defined) labels in FreeSurfer
Right and left labels for entorhinal are available in freesurfer 5.3
The labels are in freesurfer surface space and located in subjects dir subj/label/?h.entorhinal_exvivo.label
See instructions on how to view in freeview
To generate stats on this label (../stats/$hemi.BA.stats)